A contact-waiting-time metric and RNA folding rates

Details A contact-waiting-time metric and RNA folding rates A contact-waiting-time metric and RNA folding rates

2009-08-14

arxiv.org/abs/0908.2025v1

Biology

Quantitative Biology

Biomolecules

15 pages, 1 figure, 3 tables, matlab code. Published in FEBS Letters (June '09)

Scientific paper

Metrics for indirectly predicting the folding rates of RNA sequences are of interest. In this letter, we introduce a simple metric of RNA structural complexity, which accounts for differences in the energetic contributions of RNA base contacts toward RNA structure formation. We apply the metric to RNA sequences whose folding rates were previously determined experimentally. We find that the metric has good correlation (correlation coefficient: -0.95, p << 0.01) with the logarithmically transformed folding rates of those RNA sequences. This suggests that the metric can be useful for predicting RNA folding rates. We use the metric to predict the folding rates of bacterial and eukaryotic group II introns. Future applications of the metric (e.g., to predict structural RNAs) could prove fruitful.

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